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Add changes from Sarah to tutorial code #2

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10 changes: 5 additions & 5 deletions code/tutorials/synth_sumb/tracing/mb_fils_network.py
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Expand Up @@ -36,20 +36,20 @@

####### Input data

ROOT_PATH = '../../../..' # Data path
ROOT_PATH = '/scratch/users/muth9/simsiam/particle_picking' # Data path

# Input STAR file with the GraphMCF pickles
in_star = ROOT_PATH + '/data/tutorials/synth_sumb/graphs/test_1_seg_mb_graph.star' # The outuput of mb_graph.py
in_star = ROOT_PATH + '/data/graphs/PN_seg_mb_graph.star' # The outuput of mb_graph.py

# Sources slice XML file
in_sources = ROOT_PATH + '/data/tutorials/synth_sumb/fils/in/mb_sources.xml'
in_sources = ROOT_PATH + '/pyseg-container/pyseg_system/data/tutorials/synth_sumb/tracing/fils/in/mb_sources.xml'

# Targets slice XML file
in_targets = ROOT_PATH + '/data/tutorials/synth_sumb/fils/in/no_mb_targets.xml'
in_targets = ROOT_PATH + '/pyseg-container/pyseg_system/data/tutorials/synth_sumb/tracing/fils/in/no_mb_targets.xml'

####### Output data

out_dir = ROOT_PATH + '/data/tutorials/synth_sumb/fils/out' # '/fils/cyto'
out_dir = ROOT_PATH + '/data/fils' # '/fils/cyto'
out_int_g = True

####### Filament geometrical parameters
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